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0
votes
0
replies
160
views
SNV occuring 2 fold more in forward than in reverse reads should be filtered?
VariantCalling
6 months ago by jeni ▴ 60
0
votes
0
replies
3.7k
views
Comment: Comment: MAGERI: a software tool for calling rare variants and detecting circulating tumo
14 months ago by jeni ▴ 60
10
votes
5
replies
3.4k
views
Remove supplementary alignments from a bam file
alignment
updated 17 months ago by • 0 • written 2.3 years ago by ▴ 60
0
votes
1
reply
415
views
How to statistically determine if a mutation has an impact on expression individually for one patient
RNA-Seq variant calling
18 months ago by jeni ▴ 60
0
votes
1
reply
405
views
Comment: C: Correct number of detected variants by coverage
20 months ago by jeni ▴ 60
0
votes
3
replies
405
views
Correct number of detected variants by coverage
variant calling
20 months ago by jeni ▴ 60
0
votes
0
replies
595
views
Comment: C: Differencial expression analysis between groups determined by two variables
22 months ago by jeni ▴ 60
0
votes
3
replies
595
views
Differencial expression analysis between groups determined by two variables
expression microarray clustering
22 months ago by jeni ▴ 60
0
votes
1
reply
842
views
Comment: C: Does it make sense to transform expression data to zscore after performing RMA?
22 months ago by jeni ▴ 60
0
votes
1
reply
842
views
Comment: C: Does it make sense to transform expression data to zscore after performing RMA?
22 months ago by jeni ▴ 60
3
votes
6
replies
842
views
Does it make sense to transform expression data to zscore after performing RMA?
microarray expression
updated 3 months ago by • 0 • written 22 months ago by ▴ 60
0
votes
0
replies
472
views
Is it right to use a low amount of bumphunter permutations?
methylation microarray DMR
22 months ago by jeni ▴ 60
0
votes
1
reply
1.7k
views
Comment: C: HOMER hg19 not found in config.txt
22 months ago by jeni ▴ 60
0
votes
0
replies
375
views
How to deal with SNPs and INDELs called in hypermutated regions?
variant calling
2.0 years ago by jeni ▴ 60
0
votes
0
replies
408
views
Where to find a list of hypermutated regions for hg19 assembly?
variant calling
2.0 years ago by jeni ▴ 60
2
votes
1
reply
626
views
How to know which genes are favouring or inactivating a pathway in a gene set enrichment analysis
enrichment analysis
updated 2.1 years ago by ★ 2.1k • written 2.1 years ago by ▴ 60
0
votes
0
replies
691
views
Reduce GRanges by different lengths of overlapping, deppending on each compared intervals
GRanges
2.1 years ago by jeni ▴ 60
0
votes
3
replies
1.7k
views
HOMER hg19 not found in config.txt
HOMER motif finding
updated 11 months ago by • 0 • written 2.1 years ago by ▴ 60
0
votes
0
replies
782
views
Comment: C: Best practice to find regulatory motifs in a set of sequences
2.2 years ago by jeni ▴ 60
0
votes
1
reply
782
views
Comment: C: Best practice to find regulatory motifs in a set of sequences
2.2 years ago by jeni ▴ 60
0
votes
1
reply
782
views
Comment: C: Best practice to find regulatory motifs in a set of sequences
2.2 years ago by jeni ▴ 60
3
votes
9
replies
782
views
Best practice to find regulatory motifs in a set of sequences
regulatory motif finding
updated 2.2 years ago by ★ 20k • written 2.2 years ago by ▴ 60
0
votes
1
reply
782
views
Comment: C: Best practice to find regulatory motifs in a set of sequences
2.2 years ago by jeni ▴ 60
0
votes
1
reply
772
views
Comment: C: Best way to call differencially methylated positions taking into account results
2.2 years ago by jeni ▴ 60
3
votes
3
replies
772
views
Best way to call differencially methylated positions taking into account results from both Beta and M values
methylation
updated 2.2 years ago by ★ 2.1k • written 2.2 years ago by ▴ 60
0
votes
1
reply
9.1k
views
Comment: C: Beta-values, M-values and thresholds on effect size
2.2 years ago by jeni ▴ 60
2
votes
5
replies
780
views
VEP is returning MOTIF_NAME values not recognised by Ensembl
snp Ensembl VEP
updated 2.2 years ago by ▴ 270 • written 2.2 years ago by ▴ 60
0
votes
0
replies
404
views
Download all positions where a motif exist from the genome browser
genome
2.2 years ago by jeni ▴ 60
0
votes
1
reply
780
views
Comment: C: VEP is returning MOTIF_NAME values not recognised by Ensembl
2.2 years ago by jeni ▴ 60
0
votes
0
replies
410
views
Comment: C: Pathways analysis taking into account the number of times a gene is present amon
2.2 years ago by jeni ▴ 60
0
votes
1
reply
410
views
Comment: C: Pathways analysis taking into account the number of times a gene is present amon
2.2 years ago by jeni ▴ 60
0
votes
1
reply
410
views
Comment: C: Pathways analysis taking into account the number of times a gene is present amon
2.2 years ago by jeni ▴ 60
0
votes
6
replies
410
views
Pathways analysis taking into account the number of times a gene is present among several patients
snp
2.2 years ago by jeni ▴ 60
0
votes
0
replies
599
views
Comment: C: filter_vep not properly filtering
2.2 years ago by jeni ▴ 60
2
votes
2
replies
831
views
Read genotype information with VariantAnnotation
SNP R vcf Bioconductor VariantAnnotation
updated 2.2 years ago by ★ 2.9k • written 2.2 years ago by ▴ 60
0
votes
2
replies
599
views
filter_vep not properly filtering
snp
updated 2.2 years ago by 36k • written 2.3 years ago by ▴ 60
0
votes
0
replies
1.9k
views
Comment: C: Parse VEP VCF with variantAnnotation
2.3 years ago by jeni ▴ 60
4
votes
6
replies
1.9k
views
Parse VEP VCF with variantAnnotation
snp R
2.3 years ago by jeni ▴ 60
0
votes
0
replies
1.9k
views
Comment: C: Parse VEP VCF with variantAnnotation
2.3 years ago by jeni ▴ 60
0
votes
1
reply
1.0k
views
Comment: C: Is it right to combine multiple runs downloaded from SRA?
2.3 years ago by jeni ▴ 60
1
vote
4
replies
1.0k
views
Is it right to combine multiple runs downloaded from SRA?
next-gen
2.3 years ago by jeni ▴ 60
0
votes
4
replies
394
views
How to remove reads supporting the same fragment that other reads support
Assembly genome
2.3 years ago by jeni ▴ 60
0
votes
0
replies
394
views
Comment: C: How to remove reads supporting the same fragment that other reads support
2.3 years ago by jeni ▴ 60
2
votes
6
replies
1.5k
views
Extract reads with insert size 0 from a bam file
alignment
updated 2.3 years ago by 8.4k • written 2.3 years ago by ▴ 60
0
votes
0
replies
1.5k
views
Comment: C: Extract reads with insert size 0 from a bam file
2.3 years ago by jeni ▴ 60
0
votes
1
reply
1.5k
views
Comment: C: Extract reads with insert size 0 from a bam file
2.3 years ago by jeni ▴ 60
0
votes
0
replies
544
views
Comment: C: Transform genomic intervals to genomic positions in an R dataframe
updated 2.4 years ago by 82k • written 2.4 years ago by ▴ 60
0
votes
1
reply
544
views
Comment: C: Transform genomic intervals to genomic positions in an R dataframe
2.4 years ago by jeni ▴ 60
0
votes
5
replies
544
views
Transform genomic intervals to genomic positions in an R dataframe
R
2.4 years ago by jeni ▴ 60
0
votes
1
reply
496
views
Plot per base coverage from regions coverage with R
R
updated 2.4 years ago by 5.6k • written 2.4 years ago by ▴ 60
54 results • Page 1 of 2
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